Variant report

Variant	rs7078874
Chromosome Location	chr10:23738468-23738469
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:23734822..23737617-chr10:23738406..23741055,2	MCF-7	breast:
2	chr10:23732386..23735333-chr10:23736238..23738738,2	MCF-7	breast:
3	chr10:23737577..23740196-chr10:23740591..23742744,2	K562	blood:
4	chr10:23732163..23734973-chr10:23736467..23739152,3	K562	blood:
5	chr10:23726848..23728712-chr10:23736442..23738987,2	K562	blood:
6	chr10:23732769..23734965-chr10:23736236..23739152,2	K562	blood:

Variant related genes	Relation type
ENSG00000165312	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1511822	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1511825	1.00[ASN][1000 genomes]
rs16923290	1.00[ASN][1000 genomes]
rs16923324	1.00[ASN][1000 genomes]
rs16923337	1.00[ASN][1000 genomes]
rs16923381	0.93[ASN][1000 genomes]
rs3864843	0.93[ASN][1000 genomes]
rs3924036	0.93[ASN][1000 genomes]
rs4586049	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56411865	0.93[ASN][1000 genomes]
rs56874947	1.00[ASN][1000 genomes]
rs58870551	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6482275	1.00[ASN][1000 genomes]
rs7084657	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7097167	0.88[ASN][1000 genomes]
rs7100487	1.00[ASN][1000 genomes]
rs73602552	1.00[ASN][1000 genomes]
rs73602553	1.00[ASN][1000 genomes]
rs73602557	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73602558	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73602560	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73602561	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7902534	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7904709	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7917171	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9651373	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv825305	chr10:23698620-23740919	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv975033	chr10:23726218-23738848	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv831811	chr10:23734326-23913370	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:23731000-23738600	Weak transcription	Placenta	Placenta
2	chr10:23731200-23738600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr10:23731600-23750600	Weak transcription	HSMMtube	muscle
4	chr10:23731800-23740200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr10:23731800-23747800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr10:23732000-23740000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr10:23732200-23739200	Weak transcription	Stomach Smooth Muscle	stomach
8	chr10:23732200-23747800	Weak transcription	NHEK	skin
9	chr10:23732400-23741200	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr10:23732600-23740400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr10:23732600-23740400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr10:23732600-23750400	Weak transcription	Brain Cingulate Gyrus	brain
13	chr10:23732800-23741000	Weak transcription	Brain Substantia Nigra	brain
14	chr10:23732800-23744000	Weak transcription	Right Ventricle	heart
15	chr10:23733000-23740000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr10:23733000-23740400	Weak transcription	Fetal Brain Female	brain
17	chr10:23733000-23740600	Weak transcription	Fetal Intestine Small	intestine
18	chr10:23733000-23741000	Weak transcription	Psoas Muscle	Psoas
19	chr10:23733200-23738600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr10:23733600-23738600	Weak transcription	Fetal Muscle Trunk	muscle
21	chr10:23735000-23744400	Weak transcription	Stomach Mucosa	stomach
22	chr10:23735400-23742600	Enhancers	Primary B cells from peripheral blood	blood
23	chr10:23736000-23740000	Weak transcription	Fetal Stomach	stomach
24	chr10:23736600-23738600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
25	chr10:23736800-23738600	Enhancers	Primary T helper cells fromperipheralblood	blood
26	chr10:23736800-23738800	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr10:23736800-23741600	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr10:23737000-23738800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
29	chr10:23737400-23738600	Enhancers	Primary T cells from cord blood	blood
30	chr10:23737400-23738600	Enhancers	Primary T helper naive cells from peripheral blood	blood
31	chr10:23737400-23738600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr10:23737400-23739200	Enhancers	Primary neutrophils fromperipheralblood	blood
33	chr10:23737400-23739400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
34	chr10:23737600-23738600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr10:23737600-23738600	Enhancers	Primary T killer memory cells from peripheral blood	blood
36	chr10:23737600-23739000	Enhancers	Brain Hippocampus Middle	brain
37	chr10:23737800-23738600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr10:23737800-23738800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr10:23737800-23739000	Enhancers	Skeletal Muscle Female	skeletal muscle
40	chr10:23738000-23738600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr10:23738000-23738600	Enhancers	Primary hematopoietic stem cells	blood
42	chr10:23738000-23738600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr10:23738000-23738800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
44	chr10:23738000-23739200	Enhancers	Adipose Nuclei	Adipose
45	chr10:23738000-23740400	Enhancers	Primary B cells from cord blood	blood
46	chr10:23738200-23738600	Enhancers	Primary T cells fromperipheralblood	blood
47	chr10:23738200-23739000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
48	chr10:23738200-23739800	Weak transcription	GM12878-XiMat	blood
49	chr10:23738200-23740800	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr10:23738200-23749400	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links